15-species benchmark

benchmark · DDA · 2 versions · 2 papers

De novo sequencing benchmark built by the MassNet authors from 15 PRIDE submissions across animals, plants and microbes, acquired on Q Exactive HF, Orbitrap Exploris 480 and Orbitrap Astral instruments.
Kind benchmark
Acquisition DDA
Organisms Homo sapiens; Mus musculus; Aedes aegypti; Drosophila melanogaster; Arabidopsis thaliana; Zea mays; Solanum lycopersicum; Escherichia coli; Saccharomyces cerevisiae; Pyrococcus furiosus; Aspergillus fumigatus; Toxoplasma gondii; Trypanosoma brucei; Bacteroides thetaiotaomicron; Acinetobacter calcoaceticus/baumannii

De novo sequencing benchmark built by the MassNet authors from 15 PRIDE submissions across animals, plants and microbes, acquired on Q Exactive HF, Orbitrap Exploris 480 and Orbitrap Astral instruments.

Versions

preprint (325 files)

As first described in the bioRxiv preprint: 325 DDA files from 15 species. The preprint names no accession for it beyond the human Astral submission, PXD046453, so it has no address here.

introduced by MassNet: billion-scale AI-friendly mass spectral corpus enables robust de novo peptide sequencing

No public address: this version is named in the literature but cannot be downloaded.

Nature Methods (307 files)

307 DDA LC-MS/MS files from 15 species, deposited inside PXD071590 and assembled from the 15 PRIDE submissions listed as provenance. Four of them (PXD028713, PXD040002, PXD025030, PXD046453) are also in MassNet and were excluded from XuanjiNovo training.

introduced by MassNet: billion-scale AI-ready mass spectral corpus empowering scalable deep learning in proteomics

Where it lives:

Assembled from 15 third-party submissions:

Deposited by (2)

Each of these introduced a DIFFERENT version, listed beside it; a deposit itself happens once.

Methods on these papers (1)

Taken from the describing links only, so a paper that merely ran a tool on this data does not make that tool a method of it.

Seen in the charts

Back to the full map

Back to top